Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-09-20 15:05:27 -0400 (Mon, 20 Sep 2021).

CHECK results for roar on tokay2

To the developers/maintainers of the roar package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/roar.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 1616/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
roar 1.28.0  (landing page)
Elena Grassi
Snapshot Date: 2021-09-19 04:50:10 -0400 (Sun, 19 Sep 2021)
git_url: https://git.bioconductor.org/packages/roar
git_branch: RELEASE_3_13
git_last_commit: 34c7fa7
git_last_commit_date: 2021-05-19 12:02:13 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: roar
Version: 1.28.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:roar.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings roar_1.28.0.tar.gz
StartedAt: 2021-09-20 04:09:28 -0400 (Mon, 20 Sep 2021)
EndedAt: 2021-09-20 04:14:58 -0400 (Mon, 20 Sep 2021)
EllapsedTime: 329.8 seconds
RetCode: 0
Status:   OK  
CheckDir: roar.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:roar.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings roar_1.28.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/roar.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'roar/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'roar' version '1.28.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'roar' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

roar.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/roar_1.28.0.tar.gz && rm -rf roar.buildbin-libdir && mkdir roar.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=roar.buildbin-libdir roar_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL roar_1.28.0.zip && rm roar_1.28.0.tar.gz roar_1.28.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  527k  100  527k    0     0   967k      0 --:--:-- --:--:-- --:--:--  967k
100  527k  100  527k    0     0   966k      0 --:--:-- --:--:-- --:--:--  967k

install for i386

* installing *source* package 'roar' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'roar'
    finding HTML links ... done
    RoarDataset-class                       html  
    finding level-2 HTML links ... done

    RoarDataset-constructor                 html  
    RoarDatasetFromFiles-constructor        html  
    RoarDatasetMultipleAPA-class            html  
    RoarDatasetMultipleAPA-constructor      html  
    RoarDatasetMultipleAPAFromFiles-constructor
                                            html  
    checkStep-method                        html  
    combineFisherMethod-method              html  
    computePairedPvals-method               html  
    computePvals-method                     html  
    computeRoars-method                     html  
    cores-method                            html  
    countPrePost-method                     html  
    countResults-method                     html  
    fpkmResults-method                      html  
    getFisher-method                        html  
    meanAcrossAssays-method                 html  
    pvalueCorrectFilter-method              html  
    pvalueFilter-method                     html  
    roar-package                            html  
    standardFilter-method                   html  
    totalResults-method                     html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'roar' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'roar' as roar_1.28.0.zip
* DONE (roar)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'roar' successfully unpacked and MD5 sums checked

Tests output

roar.Rcheck/tests_i386/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(roar)
> 
> test_check("roar")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 137 ]
> 
> proc.time()
   user  system elapsed 
  33.93    1.15   35.09 

roar.Rcheck/tests_x64/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(roar)
> 
> test_check("roar")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 137 ]
> 
> proc.time()
   user  system elapsed 
  35.96    0.25   36.40 

Example timings

roar.Rcheck/examples_i386/roar-Ex.timings

nameusersystemelapsed
RoarDataset-class0.020.000.02
RoarDataset-constructor0.390.060.45
RoarDatasetFromFiles-constructor000
RoarDatasetMultipleAPA-class000
RoarDatasetMultipleAPA-constructor0.440.090.53
RoarDatasetMultipleAPAFromFiles-constructor000
computePairedPvals-method2.620.433.04
computePvals-method1.000.031.04
computeRoars-method0.880.070.95
countPrePost-method0.770.050.81
countResults-method0.980.000.99
fpkmResults-method0.950.000.95
pvalueCorrectFilter-method0.990.031.01
pvalueFilter-method1.010.021.04
standardFilter-method0.940.050.98
totalResults-method0.950.010.97

roar.Rcheck/examples_x64/roar-Ex.timings

nameusersystemelapsed
RoarDataset-class0.020.000.02
RoarDataset-constructor0.310.060.37
RoarDatasetFromFiles-constructor000
RoarDatasetMultipleAPA-class000
RoarDatasetMultipleAPA-constructor0.420.060.48
RoarDatasetMultipleAPAFromFiles-constructor000
computePairedPvals-method1.900.071.95
computePvals-method1.000.011.02
computeRoars-method0.850.080.93
countPrePost-method0.860.000.86
countResults-method1.020.051.07
fpkmResults-method1.080.001.07
pvalueCorrectFilter-method1.010.001.02
pvalueFilter-method1.050.001.05
standardFilter-method1.020.061.07
totalResults-method0.920.010.94